Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,158,538	C→T	H17Y (CAT→TAT)	oxyR →	oxidative and nitrosative stress transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,158,538	0	C	T	100.0%	161.1 / NA	50	H17Y (CAT→TAT)	oxyR	oxidative and nitrosative stress transcriptional regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (27/23); total (27/23)

CAGAATGCTTGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAA  >  NC_000913/4158412‑4158673

cagAATGCTTGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTg                                                                                                                             <  1:1028006/139‑1 (MQ=255)

    aTGGTTGATAGGGATAATCGTTCATTGCTATTCTAACTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGAGCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGc                                                                                                                         <  2:843156/139‑1 (MQ=255)

         tGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCa                                                                                                                        >  2:79314/1‑135 (MQ=255)

         tGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCa                                                                                                                        <  1:79314/135‑1 (MQ=255)

         tGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGAtt                                                                                                                    >  2:343701/1‑139 (MQ=255)

            tAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCt                                                                                                                 <  1:343701/139‑1 (MQ=255)

                                   tCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCtt                                                                                          >  1:996273/1‑139 (MQ=255)

                                       ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCg                                                                                      >  2:16317/1‑139 (MQ=255)

                                       ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCg                                                                                      >  1:197540/1‑139 (MQ=255)

                                       ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCg                                                                                      >  1:339828/1‑139 (MQ=255)

                                           tCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  <  2:197540/139‑1 (MQ=255)

                                            cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTag                                                                                                       >  2:85/1‑117 (MQ=255)

                                            cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTag                                                                                                       <  1:85/117‑1 (MQ=255)

                                            cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCaa                                                                                 >  1:391895/1‑139 (MQ=255)

                                               cATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTcc                                                                                                                  >  1:995084/1‑103 (MQ=255)

                                               cATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTcc                                                                                                                  <  2:995084/103‑1 (MQ=255)

                                                 tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTagccag                                                                                                   >  2:307754/1‑116 (MQ=255)

                                                 tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTagccag                                                                                                   <  1:307754/116‑1 (MQ=255)

                                                 tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCg                                                                            >  1:1110382/1‑139 (MQ=255)

                                                 tGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCg                                                                            <  2:339828/139‑1 (MQ=255)

                                                       aTCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCt                                                                      >  1:1094797/1‑139 (MQ=255)

                                                                                    atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAg                                                                                        <  2:292822/92‑1 (MQ=255)

                                                                                    atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAg                                                                                        >  1:292822/1‑92 (MQ=255)

                                                                                    atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  >  1:124605/1‑98 (MQ=255)

                                                                                    atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  <  2:124605/98‑1 (MQ=255)

                                                                                     ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGt                                                                                                                              >  2:601818/1‑53 (MQ=255)

                                                                                     ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGt                                                                                                                              <  1:601818/53‑1 (MQ=255)

                                                                                        gTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCg                                     >  1:323784/1‑139 (MQ=255)

                                                                                           aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                  <  1:1112796/139‑1 (MQ=255)

                                                                                           aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                  <  2:1094797/139‑1 (MQ=255)

                                                                                                     ccTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                        <  2:323784/139‑1 (MQ=255)

                                                                                                     ccTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                        <  1:16317/139‑1 (MQ=255)

                                                                                                      cTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                       >  2:642753/1‑139 (MQ=255)

                                                                                                      cTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGACACGTTAGCCAGCCGACGCTTa                                                                                         >  1:1049193/1‑73 (MQ=255)

                                                                                                      cTGGTGGCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGACACGTTAGCCAGCCGACGCTTa                                                                                         <  2:1049193/73‑1 (MQ=255)

                                                                                                        ggtggCATTGGCTGAACACCGCTATTTTCGGTGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                     >  1:760530/1‑139 (MQ=255)

                                                                                                        ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  <  2:189915/78‑1 (MQ=255)

                                                                                                        ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCa                                                                                  >  1:189915/1‑78 (MQ=255)

                                                                                                        ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTa                                                                          <  2:670345/86‑1 (MQ=255)

                                                                                                        ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                     >  1:623862/1‑139 (MQ=255)

                                                                                                        ggtggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGACAAATTCGTa                                                                          >  1:670345/1‑86 (MQ=255)

                                                                                                          tggCATTGGCTGAACACCGCTATTTTCGGTGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgtt                   <  2:760530/139‑1 (MQ=255)

                                                                                                           ggCATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgttg                  >  1:811323/1‑139 (MQ=255)

                                                                                                             cATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                       >  1:780358/1‑132 (MQ=255)

                                                                                                             cATTGGCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                       <  2:780358/132‑1 (MQ=255)

                                                                                                                 ggCTGAACACCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCAcc            <  2:391895/139‑1 (MQ=255)

                                                                                                                       acacCGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCg      >  2:896314/1‑139 (MQ=255)

                                                                                                                           cGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTa                                                                                         <  1:515340/52‑1 (MQ=255)

                                                                                                                           cGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa  >  2:367058/1‑139 (MQ=255)

                                                                                                                           cGCTATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa  >  1:638866/1‑139 (MQ=255)

CAGAATGCTTGATAGGGATAATCGTTCATTGCTATTCTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAA  >  NC_000913/4158412‑4158673

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A